Table 2.
Chromosomal structural variation between X. albilineans strains Xa-FJ1 from China and GPE PC73 from Guadeloupe (See also Figure 4).
| Region | Xa-FJ1 | GPE PC73 | Variation Type (Reference = Xa-FJ1) | Fragment Length (nt) | Predicted Cause of Variation | Affected Gene(s) | |||
|---|---|---|---|---|---|---|---|---|---|
| Begins | Ends | Begins | Ends | Xa-FJ1 | GPE PC73 | ||||
| R1 | 219,400 | 219,400 | 219,691 | 271,791 | Insertion | 0 | 52,101 | Prophage integration | XALc_0171-XALc_0242 (72 specific genes in GPE PC73) |
| R2 | 679,518 | 681,202 | 731,933 | 731,933 | Deletion | 1685 | 0 | Recombination/assembly defect | XaFJ1_GM000644; XaFJ1_GM000645; XaFJ1_GM000646 |
| R3 | 1,165,743 | 1,168,928 | 1,216,465 | 1,216,465 | Deletion | 3186 | 0 | Recombination/assembly defect | XaFJ1_GM001035; XALc_1056 |
| R4 | 1,727,177 | 1,727,177 | 1,774,582 | 1,780,815 | Insertion | 0 | 6234 | Recombination/assembly defect | XaFJ1_GM001510; XALc_1529 |
| R5 | 1,736,246 | 1,736,755 | 1,789,885 | 1,790,986 | Complex Indel | 510 | 1102 | Prophage integration | XALC_1536-XALC_1545 (10 specific genes in GPE PC73); XaFJ1_GM001517-XaFJ1_GM001525 (9 specific genes in Xa-FJ1) |
| R6 | 1,736,873 | 1,741,929 | 1,791,101 | 1,795,842 | Complex Indel | 5057 | 4742 | Prophage integration | |
| R7 | 1,742,065 | 1,742,065 | 1,795,979 | 1,796,122 | Insertion | 0 | 144 | Prophage integration | |
| R8 | 1,742,742 | 1,742,742 | 1,796,839 | 1,797,116 | Insertion | 0 | 278 | Prophage integration | |
| R9 | 1,778,246 | 1,784,662 | 1,832,620 | 1,832,620 | Deletion | 6417 | 0 | Recombination/assembly defect | XaFJ1_GM001532; XALc_1551 |
| R10 | 2,484,556 | 2,484,556 | 2,532,506 | 2,535,350 | Insertion | 0 | 2845 | Recombination/assembly defect | XaFJ1_GM002152; XALc_2151; XALc_2152 |
| R11 | 26,75,326 | 2,679,992 | 2,726,120 | 2,726,120 | Deletion | 4667 | 0 | Transposable elements | XaFJ1_GM002293; XaFJ1_GM002292; XaFJ1_GM002291; XALc_2290 |
| R12 | 3,041,680 | 3,041,680 | 3,087,815 | 3,088,684 | Insertion | 0 | 870 | Transposable elements | XALc_2603; XALc_2604 |
| R13 | 3,377,378 | 3,377,378 | 3,424,367 | 3,424,696 | Insertion | 0 | 330 | CRISPR-Cas | Intergenic region which contains clustered regulatory interspaced short palindromic repeats |
| R14 | 3,377,647 | 3,377,713 | 3,424,965 | 3,424,965 | Deletion | 67 | 0 | CRISPR-Cas | |
| R15 | 3,377,912 | 3,377,912 | 3,425,163 | 3,425,227 | Insertion | 0 | 65 | CRISPR-Cas | |
| R16 | 3,460,518 | 3,463,513 | 3,507,852 | 3,507,852 | Deletion | 2996 | 0 | Transposable elements | XaFJ1_GM002988; XaFJ1_GM002989; XaFJ1_GM002990; XALc_2969 |